Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015923.1 Corchorus capsularis cultivar CVL-1 contig15944, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 4690
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36


Found at i:1589 original size:19 final size:18

Alignment explanation


    Indices: 1565--1601  Score: 56
    Period size: 19  Copynumber: 2.0  Consensus size: 18

       1555 TTGAAGATTT

                               
       1565 CTTGAAGACAATTTGAAGA
          1 CTTGAAGACAA-TTGAAGA

                     *        
       1584 CTTGAAGACCATTGAAGA
          1 CTTGAAGACAATTGAAGA

       1602 ATTATTTCAA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  18    7  0.41
  19   10  0.59

ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24


Consensus pattern (18 bp):   
CTTGAAGACAATTGAAGA

Found at i:3833 original size:12 final size:13

Alignment explanation


    Indices: 3802--3845  Score: 70
    Period size: 13  Copynumber: 3.3  Consensus size: 13

       3792 GTTATTCCCC

                         
       3802 AATTTTTGAAACA
          1 AATTTTTGAAACA

                         
       3815 AATTTTTGAAACA
          1 AATTTTTGAAACA

                        * 
       3828 AATTTTTCGAAAAA
          1 AATTTTT-GAAACA

                
       3842 AATT
          1 AATT

       3846 GATTTTTGAC


Statistics
Matches: 29,  Mismatches: 1, Indels: 1
        0.94            0.03        0.03

Matches are distributed among these distances:
  13   20  0.69
  14    9  0.31

ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39


Consensus pattern (13 bp):   
AATTTTTGAAACA

Done.